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FIX: throw an exception when the output image(s) cannot be written because of all samples rejected

Merged FIX: throw an exception when the output image(s) cannot be written because of all samples rejected
13-fix_patchextraction_empty_output into develop
Merged Cresson Remi requested to merge 13-fix_patchextraction_empty_output into develop

Closes #13 (closed)

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